Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 4 of 75
Found at i:911503 original size:13 final size:14
Alignment explanation
Indices: 911485--911518 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
911475 ATAATAAATA
911485 TATTTTTT-ATTTT
1 TATTTTTTAATTTT
911498 TATTTTTTAATTTT
1 TATTTTTTAATTTT
*
911512 TAATTTT
1 TATTTTT
911519 AAAATACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TATTTTTTAATTTT
Found at i:911510 original size:14 final size:13
Alignment explanation
Indices: 911485--911518 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
911475 ATAATAAATA
911485 TATTTTTTATTTT
1 TATTTTTTATTTT
911498 TATTTTTTAATTTT
1 TATTTTTT-ATTTT
911512 TAATTTT
1 T-ATTTT
911519 AAAATACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 6 0.32
15 5 0.26
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:915382 original size:2 final size:2
Alignment explanation
Indices: 915375--915400 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
915365 CCAATTTTGA
915375 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
915401 GTGTGTGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:916027 original size:26 final size:25
Alignment explanation
Indices: 915982--916044 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
915972 TTTTTTTAAG
* ** *
915982 TTAAAATTAAGTATTGAATATTATA
1 TTAAAATTAAATATACAATATAATA
916007 CTTAAAATTAAATATACAATATAATA
1 -TTAAAATTAAATATACAATATAATA
916033 -TAAAATTTAAAT
1 TTAAAA-TTAAAT
916045 TATGAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 5 0.16
25 6 0.19
26 21 0.66
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (25 bp):
TTAAAATTAAATATACAATATAATA
Found at i:917052 original size:24 final size:25
Alignment explanation
Indices: 917005--917052 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
916995 TTATTGAGAA
*
917005 TTTTTTTTCATTGATTTATCTTCTT
1 TTTTTTTTCATTGATTAATCTTCTT
**
917030 TTTTTTTTTGTTGATTAAT-TTCT
1 TTTTTTTTCATTGATTAATCTTCT
917053 AATGTTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.12, C:0.08, G:0.06, T:0.73
Consensus pattern (25 bp):
TTTTTTTTCATTGATTAATCTTCTT
Found at i:918350 original size:98 final size:98
Alignment explanation
Indices: 918181--918378 Score: 396
Period size: 98 Copynumber: 2.0 Consensus size: 98
918171 GAAAAGCGTG
918181 AAGCATATGACAAGAGAGGGAAGACCAGAGTGATACCGTAAGTTTATATGCTATAAGTGTGATGT
1 AAGCATATGACAAGAGAGGGAAGACCAGAGTGATACCGTAAGTTTATATGCTATAAGTGTGATGT
918246 TCATTATCTCGCATACTGTTTTGAAATGCATAA
66 TCATTATCTCGCATACTGTTTTGAAATGCATAA
918279 AAGCATATGACAAGAGAGGGAAGACCAGAGTGATACCGTAAGTTTATATGCTATAAGTGTGATGT
1 AAGCATATGACAAGAGAGGGAAGACCAGAGTGATACCGTAAGTTTATATGCTATAAGTGTGATGT
918344 TCATTATCTCGCATACTGTTTTGAAATGCATAA
66 TCATTATCTCGCATACTGTTTTGAAATGCATAA
918377 AA
1 AA
918379 TGACATGTCA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 100 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.29
Consensus pattern (98 bp):
AAGCATATGACAAGAGAGGGAAGACCAGAGTGATACCGTAAGTTTATATGCTATAAGTGTGATGT
TCATTATCTCGCATACTGTTTTGAAATGCATAA
Found at i:920864 original size:31 final size:31
Alignment explanation
Indices: 920826--920890 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
920816 CAAAATGATT
920826 ACTAAATTATTAGAAAGTT-TCCATTTAAGTC
1 ACTAAATTATTAGAAAGTTCT-CATTTAAGTC
* *
920857 ACTAAATTATTTGAAAGTTCTTATTTAAGTC
1 ACTAAATTATTAGAAAGTTCTCATTTAAGTC
920888 ACT
1 ACT
920891 CATGTGTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (31 bp):
ACTAAATTATTAGAAAGTTCTCATTTAAGTC
Found at i:921926 original size:30 final size:30
Alignment explanation
Indices: 921890--921966 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
921880 TGATTTGAGA
*
921890 GACGAACACGGCAACCCTATTCAACTCACC
1 GACGAACACGGCAACCCGATTCAACTCACC
* *
921920 GACGAACACGGCAACCCGGTTCAACTCACT
1 GACGAACACGGCAACCCGATTCAACTCACC
*
921950 GACGAACACGGTAACCC
1 GACGAACACGGCAACCC
921967 CATTTATGTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.32, C:0.38, G:0.18, T:0.12
Consensus pattern (30 bp):
GACGAACACGGCAACCCGATTCAACTCACC
Found at i:928191 original size:12 final size:12
Alignment explanation
Indices: 928174--928218 Score: 65
Period size: 11 Copynumber: 3.7 Consensus size: 12
928164 GAGCAAAGAA
928174 TTATTTTTATTT
1 TTATTTTTATTT
928186 TTATTTTTA-TT
1 TTATTTTTATTT
928197 TTATTTTTAATTT
1 TTATTTTT-ATTT
928210 TTAATTTTT
1 TT-ATTTTT
928219 TACTTGTTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 10 0.33
12 10 0.33
13 4 0.13
14 6 0.20
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (12 bp):
TTATTTTTATTT
Found at i:928193 original size:7 final size:6
Alignment explanation
Indices: 928174--928218 Score: 65
Period size: 6 Copynumber: 7.3 Consensus size: 6
928164 GAGCAAAGAA
928174 TTATTT TTATTT TTATTT TTA-TT TTATTT TTAATTT TTAATTT TT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TT-ATTT TT-ATTT TT
928219 TACTTGTTCG
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
5 5 0.14
6 19 0.51
7 13 0.35
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:931631 original size:141 final size:140
Alignment explanation
Indices: 931377--931634 Score: 333
Period size: 141 Copynumber: 1.8 Consensus size: 140
931367 GAACGGGATA
* * *
931377 AACTTTTCCACCTCCGTTAGAGGAGGCAAAGGGAAAGGCATACCGTACACTAAGTTTCTTCTCGA
1 AACTTTTCCACCTCCGTTAAAGGAGGAAAAGGGAAAGGCATACCGAACACTAAGTTTCTTCTCGA
* * * * *
931442 TACTTCATCACGATGAAACGATGCATCATCATGTGATGGATCAGGATCATCATTATCATGATCAT
66 TAATTCATCACGACGAAACGATGCATCAACA-GTCATGCATCAGGATCATCATTATCATGATCAT
931507 GCATCAGGTTG
130 GCATCAGGTTG
*
931518 AACTGTTT-CACCTCCGTTAAAGGGGGAAAAGGGAAAGGCATACCGAACACTAAGTTTCTTCTTC
1 AACT-TTTCCACCTCCGTTAAAGGAGGAAAAGGGAAAGGCATACCGAACACTAAG--T-TTCTTC
* * **
931582 TCGATAATTCGTCACGACGAAATGATGCATCAACA-TCAT-CATCTTGATCATCA
62 TCGATAATTCATCACGACGAAACGATGCATCAACAGTCATGCATCAGGATCATCA
931635 GATCCATCAT
Statistics
Matches: 100, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
141 57 0.57
142 6 0.06
143 1 0.01
144 36 0.36
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.27
Consensus pattern (140 bp):
AACTTTTCCACCTCCGTTAAAGGAGGAAAAGGGAAAGGCATACCGAACACTAAGTTTCTTCTCGA
TAATTCATCACGACGAAACGATGCATCAACAGTCATGCATCAGGATCATCATTATCATGATCATG
CATCAGGTTG
Found at i:942885 original size:16 final size:17
Alignment explanation
Indices: 942864--942898 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
942854 ATTAAAATTT
942864 TAAAAATA-ATTAGTTA
1 TAAAAATATATTAGTTA
*
942880 TAAAAATATTTTAGTTA
1 TAAAAATATATTAGTTA
942897 TA
1 TA
942899 TTATGAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (17 bp):
TAAAAATATATTAGTTA
Found at i:946730 original size:14 final size:14
Alignment explanation
Indices: 946711--946749 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
946701 TGCTACCATT
946711 TTACTATTTTGTTG
1 TTACTATTTTGTTG
*
946725 TTACTATTTTATTG
1 TTACTATTTTGTTG
*
946739 TTATTATTTTG
1 TTACTATTTTG
946750 ATATTGTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.18, C:0.05, G:0.10, T:0.67
Consensus pattern (14 bp):
TTACTATTTTGTTG
Found at i:946810 original size:30 final size:30
Alignment explanation
Indices: 946776--946834 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
946766 ATTTTATTGA
946776 TAATTTTGTTATTATTTTA-AGGGCATTTGT
1 TAATTTTGTTATTATTTTAGA-GGCATTTGT
946806 TAATTTTGTTATTATTTTAGAGGCATTTG
1 TAATTTTGTTATTATTTTAGAGGCATTTG
946835 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.24, C:0.03, G:0.17, T:0.56
Consensus pattern (30 bp):
TAATTTTGTTATTATTTTAGAGGCATTTGT
Found at i:946948 original size:17 final size:19
Alignment explanation
Indices: 946917--946954 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
946907 GAAATATTTA
*
946917 TTTTGATGTTTTTATA-AT
1 TTTTGATGTTATTATATAT
946935 TTTTGATG-TATTATATAT
1 TTTTGATGTTATTATATAT
946953 TT
1 TT
946955 AAAAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.66
Consensus pattern (19 bp):
TTTTGATGTTATTATATAT
Found at i:947584 original size:3 final size:3
Alignment explanation
Indices: 947576--947635 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
947566 GAAGCATTTA
* *
947576 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
947624 AAT AAT AAT AAT
1 AAT AAT AAT AAT
947636 TCANNNNNNN
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:952156 original size:20 final size:20
Alignment explanation
Indices: 952105--952156 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
952095 AAATCATTGC
952105 AATATATGTAAAAATAATTT
1 AATATATGTAAAAATAATTT
* *
952125 AA-A-ATATAAAAAT-TTATT
1 AATATATGTAAAAATAAT-TT
952143 AATATATGTAAAAA
1 AATATATGTAAAAA
952157 CAACTTTTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 1 0.04
18 13 0.50
19 2 0.08
20 10 0.38
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (20 bp):
AATATATGTAAAAATAATTT
Found at i:952292 original size:14 final size:14
Alignment explanation
Indices: 952269--952308 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
952259 ACAGAAAAGT
*
952269 AAAACATTTTTCAG
1 AAAACATTTTACAG
* *
952283 AAATCATTTTACGG
1 AAAACATTTTACAG
952297 AAAACATTTTAC
1 AAAACATTTTAC
952309 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:966448 original size:15 final size:17
Alignment explanation
Indices: 966428--966460 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
966418 CAGAGAGCAC
966428 AAACAAA-AAAAA-AAA
1 AAACAAATAAAAATAAA
966443 AAACAAATAAAAATAAA
1 AAACAAATAAAAATAAA
966460 A
1 A
966461 TAGAAAGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 5 0.31
17 4 0.25
ACGTcount: A:0.88, C:0.06, G:0.00, T:0.06
Consensus pattern (17 bp):
AAACAAATAAAAATAAA
Found at i:967811 original size:22 final size:22
Alignment explanation
Indices: 967785--967829 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
967775 AAAAGTCATA
* *
967785 TATGCTTTTAGATTTTTGTATT
1 TATGCTTATAGATTTTTCTATT
*
967807 TATGCTTATATATTTTTCTATT
1 TATGCTTATAGATTTTTCTATT
967829 T
1 T
967830 TTATAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.07, G:0.09, T:0.64
Consensus pattern (22 bp):
TATGCTTATAGATTTTTCTATT
Found at i:969742 original size:2 final size:2
Alignment explanation
Indices: 969737--969768 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
969727 TCAAAAAAAG
969737 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
969769 TTCTTTTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:972138 original size:31 final size:32
Alignment explanation
Indices: 972103--972162 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
972093 TTTTTGAGCT
972103 AAATTTGGACCA-CAACCTTTT-AAAAAGAATC
1 AAATTT-GACCATCAACCTTTTGAAAAAGAATC
972134 AAATTTGACCATCAACCTTTTGAAAAAGA
1 AAATTTGACCATCAACCTTTTGAAAAAGA
972163 GTCGAAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 5 0.19
31 15 0.56
32 7 0.26
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.27
Consensus pattern (32 bp):
AAATTTGACCATCAACCTTTTGAAAAAGAATC
Found at i:973181 original size:22 final size:23
Alignment explanation
Indices: 973155--973198 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
973145 TAAAAAGTTA
973155 TAAAATGGTCATTTAA-TTATTT
1 TAAAATGGTCATTTAAGTTATTT
**
973177 TAAAATTTTCATTTAAGTTATT
1 TAAAATGGTCATTTAAGTTATT
973199 GGGTTGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (23 bp):
TAAAATGGTCATTTAAGTTATTT
Found at i:973961 original size:136 final size:136
Alignment explanation
Indices: 973717--973968 Score: 504
Period size: 136 Copynumber: 1.9 Consensus size: 136
973707 TTCTCAAATT
973717 CAAATTTCGAATTAATTGAGTTGAGGTATTCACTAAATTGATTTTTCAAATTTAGGGTGTTAAAA
1 CAAATTTCGAATTAATTGAGTTGAGGTATTCACTAAATTGATTTTTCAAATTTAGGGTGTTAAAA
973782 TTTACAATTTGAAAAAGCCGAATAACAAATTGTTATAAATAATTTTCGGGTGTTAAAATTGTTAT
66 TTTACAATTTGAAAAAGCCGAATAACAAATTGTTATAAATAATTTTCGGGTGTTAAAATTGTTAT
973847 AAATAA
131 AAATAA
973853 CAAATTTCGAATTAATTGAGTTGAGGTATTCACTAAATTGATTTTTCAAATTTAGGGTGTTAAAA
1 CAAATTTCGAATTAATTGAGTTGAGGTATTCACTAAATTGATTTTTCAAATTTAGGGTGTTAAAA
973918 TTTACAATTTGAAAAAGCCGAATAACAAATTGTTATAAATAATTTTCGGGT
66 TTTACAATTTGAAAAAGCCGAATAACAAATTGTTATAAATAATTTTCGGGT
973969 TACTATCAAT
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
136 116 1.00
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (136 bp):
CAAATTTCGAATTAATTGAGTTGAGGTATTCACTAAATTGATTTTTCAAATTTAGGGTGTTAAAA
TTTACAATTTGAAAAAGCCGAATAACAAATTGTTATAAATAATTTTCGGGTGTTAAAATTGTTAT
AAATAA
Found at i:980327 original size:118 final size:119
Alignment explanation
Indices: 980119--980356 Score: 460
Period size: 118 Copynumber: 2.0 Consensus size: 119
980109 AAATAATTTT
*
980119 TTTTCTCGTCAAATTTGTGGTCCCGAACCCACTATTTCGACTATCCCCAAATTCAGACTGTTACA
1 TTTTCTCGTCAAATTTGTGGTCCCGAAACCACTATTTCGACTATCCCCAAATTCAGACTGTTACA
980184 TGCACTCACTGTTATTTATATATTATATAATTTATAACACAAA-ACTAAACCTA
66 TGCACTCACTGTTATTTATATATTATATAATTTATAACACAAAGACTAAACCTA
980237 TTTTCTCGTCAAATTTGTGGTCCCGAAACCACTATTTCGACTATCCCCAAATTCAGACTGTTACA
1 TTTTCTCGTCAAATTTGTGGTCCCGAAACCACTATTTCGACTATCCCCAAATTCAGACTGTTACA
980302 TGCACTCACTGTTATTTATATATTATATAATTTATAACACAAAGACTAAACCTA
66 TGCACTCACTGTTATTTATATATTATATAATTTATAACACAAAGACTAAACCTA
980356 T
1 T
980357 AATAATATAT
Statistics
Matches: 118, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
118 107 0.91
119 11 0.09
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (119 bp):
TTTTCTCGTCAAATTTGTGGTCCCGAAACCACTATTTCGACTATCCCCAAATTCAGACTGTTACA
TGCACTCACTGTTATTTATATATTATATAATTTATAACACAAAGACTAAACCTA
Found at i:980656 original size:11 final size:10
Alignment explanation
Indices: 980623--980685 Score: 67
Period size: 10 Copynumber: 6.3 Consensus size: 10
980613 AGCAATTTAA
*
980623 TTTTTTTTTC
1 TTTTATTTTC
*
980633 TTTTATGTTC
1 TTTTATTTTC
980643 TTTTAATTTTC
1 TTTT-ATTTTC
980654 -TTT-TTTTC
1 TTTTATTTTC
*
980662 TTTTATGTTC
1 TTTTATTTTC
980672 TTTTAATTTTC
1 TTTT-ATTTTC
980683 TTT
1 TTT
980686 CTTTTCCATT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
8 5 0.11
9 3 0.07
10 23 0.52
11 13 0.30
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.78
Consensus pattern (10 bp):
TTTTATTTTC
Found at i:980666 original size:29 final size:29
Alignment explanation
Indices: 980625--980691 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
980615 CAATTTAATT
980625 TTTTTTTCTTTTATGTTCTTTTAATTTTC
1 TTTTTTTCTTTTATGTTCTTTTAATTTTC
980654 TTTTTTTCTTTTATGTTCTTTTAATTTTC
1 TTTTTTTCTTTTATGTTCTTTTAATTTTC
980683 TTTCTTTTC
1 TTT-TTTTC
980692 CATTATCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 32 0.86
30 5 0.14
ACGTcount: A:0.09, C:0.12, G:0.03, T:0.76
Consensus pattern (29 bp):
TTTTTTTCTTTTATGTTCTTTTAATTTTC
Found at i:980687 original size:15 final size:15
Alignment explanation
Indices: 980640--980690 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
980630 TTCTTTTATG
980640 TTCTTTTAATTTTCT
1 TTCTTTTAATTTTCT
* *
980655 TT-TTTT-CTTTTAT
1 TTCTTTTAATTTTCT
980668 GTTCTTTTAATTTTCT
1 -TTCTTTTAATTTTCT
980684 TTCTTTT
1 TTCTTTT
980691 CCATTATCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 5 0.17
14 6 0.21
15 13 0.45
16 5 0.17
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.76
Consensus pattern (15 bp):
TTCTTTTAATTTTCT
Found at i:1001388 original size:23 final size:22
Alignment explanation
Indices: 1001358--1001401 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
1001348 ATTATTCACA
*
1001358 TACATATATATTTTTCTTATATG
1 TACATATATATATTT-TTATATG
1001381 TACATATATATATTTTTATAT
1 TACATATATATATTTTTATAT
1001402 TTTATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (22 bp):
TACATATATATATTTTTATATG
Found at i:1002755 original size:106 final size:107
Alignment explanation
Indices: 1002468--1002773 Score: 436
Period size: 110 Copynumber: 2.8 Consensus size: 107
1002458 AAGATATAAG
* * *
1002468 AGGATATTTGGCTATTTGGTCCAACGAGAAATCGAAAGCCAGCGCATTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
* **
1002533 GTTTCCAAATGCAAAATATTGCCTCGTTTTAAAATTTTTGAA
66 CTTTCCAAATGCAAAATATTGCCTCACTTTAAAATTTTTGAA
*
1002575 AGGATATTTGGCTATTTGGTCGAACGGAAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCT
1 AGGATATTTGGCTATTTGGTCGAAC-G--AGAAATCGAAACCCAGCACATTAGGGCACGTTTTCT
* * *
1002640 CGAAC-TTCCAAATGCAAAATATTGCCTTACTTTGAAA-TTTTGGA
63 CG-ACTTTCCAAATGCAAAATATTGCCTCACTTTAAAATTTTTGAA
* * *
1002684 AGGATACTTGGCTATTTGGTTGAACGAGAAATCGAAACCCAACACATTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
*
1002749 CTTTCCAAATGCAAAATATCGCCTC
66 CTTTCCAAATGCAAAATATTGCCTC
1002774 GTTTTTTAAA
Statistics
Matches: 178, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
105 2 0.01
106 57 0.32
107 24 0.13
108 2 0.01
109 29 0.16
110 63 0.35
111 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (107 bp):
AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
CTTTCCAAATGCAAAATATTGCCTCACTTTAAAATTTTTGAA
Found at i:1003367 original size:3 final size:3
Alignment explanation
Indices: 1003359--1003394 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
1003349 TAAATAAGCA
1003359 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1003395 NNNNNNNNNN
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1006729 original size:3 final size:3
Alignment explanation
Indices: 1006721--1006759 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1006711 TAAATAAGCA
1006721 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1006760 GATGTAAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1006868 original size:3 final size:3
Alignment explanation
Indices: 1006860--1006896 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
1006850 ATGGGGGCGC
1006860 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1006897 GATGTAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1006969 original size:137 final size:139
Alignment explanation
Indices: 1006723--1006997 Score: 520
Period size: 137 Copynumber: 2.0 Consensus size: 139
1006713 AATAAGCAAA
1006723 TAATAATAATAATAATAATAATAATAATAATAATAATGATGTAAAGAGATAATGATAATAACATT
1 TAATAATAATAATAATAATAATAATAATAATAATAATGATGTAAAGAGATAATGATAATAACATT
1006788 AAAAATAATTAACCAAATAATAAAATCGCTAAAATACAGACTAAATTGAAATAACAACG-AA-TA
66 AAAAATAATTAACCAAATAATAAAATCGCTAAAATACAGACTAAATTGAAATAACAACGAAAGTA
1006851 TGGGGGCGC
131 TGGGGGCGC
1006860 TAATAATAATAATAATAATAATAATAATAATAATAATGATGTAATA-AGATAATGATAATAACAT
1 TAATAATAATAATAATAATAATAATAATAATAATAATGATGTAA-AGAGATAATGATAATAACAT
1006924 TAAAAATAATTAACCAAATAATAAAATCGCTAAAATACAGACTAAATTGAAATAACAACGAAAGT
65 TAAAAATAATTAACCAAATAATAAAATCGCTAAAATACAGACTAAATTGAAATAACAACGAAAGT
1006989 ATGGGGGCG
130 ATGGGGGCG
1006998 AATTCGAAAC
Statistics
Matches: 135, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
137 122 0.90
138 3 0.02
139 10 0.07
ACGTcount: A:0.56, C:0.08, G:0.11, T:0.26
Consensus pattern (139 bp):
TAATAATAATAATAATAATAATAATAATAATAATAATGATGTAAAGAGATAATGATAATAACATT
AAAAATAATTAACCAAATAATAAAATCGCTAAAATACAGACTAAATTGAAATAACAACGAAAGTA
TGGGGGCGC
Found at i:1007644 original size:15 final size:16
Alignment explanation
Indices: 1007613--1007653 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
1007603 AAGCGAATCG
*
1007613 AAGAAAAAAACTCAAA
1 AAGAAAAAAAATCAAA
1007629 AAGAAAAAAAAT-AAA
1 AAGAAAAAAAATCAAA
*
1007644 AATAAAAAAA
1 AAGAAAAAAA
1007654 TCACCTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.83, C:0.05, G:0.05, T:0.07
Consensus pattern (16 bp):
AAGAAAAAAAATCAAA
Found at i:1010344 original size:30 final size:30
Alignment explanation
Indices: 1010286--1010343 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 30
1010276 TAAAAATTCT
*
1010286 AAAAGTTTTGGAGGGTTTAATTATTTTTTA
1 AAAAGTTTTGGAGGGTTTAATGATTTTTTA
1010316 AAAAGTTTT-G-GGGTTTAATGAGTTTTTT
1 AAAAGTTTTGGAGGGTTTAATGA-TTTTTT
1010344 TTCAATAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 10 0.38
29 7 0.27
30 9 0.35
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (30 bp):
AAAAGTTTTGGAGGGTTTAATGATTTTTTA
Found at i:1011636 original size:16 final size:17
Alignment explanation
Indices: 1011604--1011636 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1011594 AAATGTGTTA
1011604 TTTAAAGTTTTTATTTT
1 TTTAAAGTTTTTATTTT
1011621 TTTAAAGTTTTT-TTTT
1 TTTAAAGTTTTTATTTT
1011637 AAAACTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (17 bp):
TTTAAAGTTTTTATTTT
Found at i:1011796 original size:19 final size:20
Alignment explanation
Indices: 1011772--1011809 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1011762 AGATGTTAAT
1011772 TTTGATTG-ATTAAACAAAA
1 TTTGATTGAATTAAACAAAA
*
1011791 TTTGATTGAATTAATCAAA
1 TTTGATTGAATTAAACAAA
1011810 TTTTTTTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (20 bp):
TTTGATTGAATTAAACAAAA
Found at i:1015947 original size:2 final size:2
Alignment explanation
Indices: 1015940--1016026 Score: 167
Period size: 2 Copynumber: 44.0 Consensus size: 2
1015930 AAATAAAGTT
1015940 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1015982 GA GA GA GA GA GA -A GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1016023 GA GA
1 GA GA
1016027 ATGAAAAAAG
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 83 0.99
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1023038 original size:21 final size:24
Alignment explanation
Indices: 1023005--1023052 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
1022995 GTTTTTTACT
1023005 AAAATAACACAAAAGAA-ATAAAA
1 AAAATAACACAAAAGAATATAAAA
*
1023028 AAAAT-AC-CAAAATAATATAAAA
1 AAAATAACACAAAAGAATATAAAA
1023050 AAA
1 AAA
1023053 TTTATTTACC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 11 0.48
23 5 0.22
ACGTcount: A:0.77, C:0.08, G:0.02, T:0.12
Consensus pattern (24 bp):
AAAATAACACAAAAGAATATAAAA
Found at i:1023083 original size:26 final size:27
Alignment explanation
Indices: 1023032--1023094 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
1023022 ATAAAAAAAA
1023032 TACCAAAATAATATAAAAAAATTTATT
1 TACCAAAATAATATAAAAAAATTTATT
1023059 TACCAAAATAATATAAAAAAA-TTATT
1 TACCAAAATAATATAAAAAAATTTATT
*
1023085 TACTAAAATA
1 TACCAAAATA
1023095 TACCAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 14 0.40
27 21 0.60
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (27 bp):
TACCAAAATAATATAAAAAAATTTATT
Found at i:1023102 original size:26 final size:27
Alignment explanation
Indices: 1023032--1023105 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
1023022 ATAAAAAAAA
*
1023032 TACCAAAATAATATAAAAAAATTTATT
1 TACCAAAATAATACAAAAAAATTTATT
*
1023059 TACCAAAATAATATAAAAAAA-TTATT
1 TACCAAAATAATACAAAAAAATTTATT
*
1023085 TACTAAAAT-ATACCAAAAAAA
1 TACCAAAATAATA-CAAAAAAA
1023106 GAAAACAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
25 3 0.07
26 20 0.45
27 21 0.48
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (27 bp):
TACCAAAATAATACAAAAAAATTTATT
Found at i:1023105 original size:27 final size:26
Alignment explanation
Indices: 1023032--1023094 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
1023022 ATAAAAAAAA
*
1023032 TACCAAAATAATATAAAAAAATTTATT
1 TACCAAAATAATA-AAAAAAAATTATT
*
1023059 TACCAAAATAATATAAAAAAATTATT
1 TACCAAAATAATAAAAAAAAATTATT
*
1023085 TACTAAAATA
1 TACCAAAATA
1023095 TACCAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 20 0.61
27 13 0.39
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (26 bp):
TACCAAAATAATAAAAAAAAATTATT
Found at i:1024647 original size:20 final size:20
Alignment explanation
Indices: 1024620--1024665 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
1024610 TTGGTAAATA
*
1024620 ATTTTTTTATATTATTTTGGT
1 ATTTTTTTAT-TTATTGTGGT
*
1024641 ATTTTTTTATTTATTGTGTT
1 ATTTTTTTATTTATTGTGGT
1024661 ATTTT
1 ATTTT
1024666 AGTAAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (20 bp):
ATTTTTTTATTTATTGTGGT
Found at i:1027328 original size:7 final size:6
Alignment explanation
Indices: 1027282--1027307 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1027272 AATAAAAGTA
1027282 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
1027308 TAAAGACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:1040556 original size:17 final size:17
Alignment explanation
Indices: 1040534--1040605 Score: 58
Period size: 18 Copynumber: 4.0 Consensus size: 17
1040524 ACTTTTTCAA
1040534 AATA-TTTTCTGTTGTAG
1 AATATTTTTCTGTTG-AG
*
1040551 AATATTTTTCAGTTGAGG
1 AATATTTTTCTGTTGA-G
*
1040569 AAAATTTTCTAACTGTTGCAG
1 AATATTTT-T--CTGTTG-AG
1040590 AATA-TTTTCTGTTGAG
1 AATATTTTTCTGTTGAG
1040606 GAAAATCCTC
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
16 2 0.04
17 11 0.24
18 17 0.38
19 2 0.04
20 3 0.07
21 9 0.20
22 1 0.02
ACGTcount: A:0.28, C:0.08, G:0.18, T:0.46
Consensus pattern (17 bp):
AATATTTTTCTGTTGAG
Found at i:1043141 original size:21 final size:20
Alignment explanation
Indices: 1043124--1043162 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1043114 ACCAAAAATT
1043124 TATTTTAAAAATTAAAAAAAG
1 TATTTT-AAAATTAAAAAAAG
1043145 TATTTTAAAATTAAAAAA
1 TATTTTAAAATTAAAAAA
1043163 CGACCCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
TATTTTAAAATTAAAAAAAG
Found at i:1045183 original size:39 final size:40
Alignment explanation
Indices: 1045140--1045228 Score: 146
Period size: 39 Copynumber: 2.3 Consensus size: 40
1045130 AATATATTTA
1045140 TTTTTATTTTTTTA-TTTTAAAATATTTTTAAAATACATT
1 TTTTTATTTTTTTATTTTTAAAATATTTTTAAAATACATT
* *
1045179 TTTTTA-TTTGTTATTTTTAAAATATTTTTAAAATACTTT
1 TTTTTATTTTTTTATTTTTAAAATATTTTTAAAATACATT
1045218 TTTTTATTTTT
1 TTTTTATTTTT
1045229 AAAATTTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
38 6 0.13
39 36 0.80
40 3 0.07
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.67
Consensus pattern (40 bp):
TTTTTATTTTTTTATTTTTAAAATATTTTTAAAATACATT
Found at i:1045206 original size:11 final size:11
Alignment explanation
Indices: 1045190--1045219 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
1045180 TTTTATTTGT
1045190 TATTTTTAAAA
1 TATTTTTAAAA
1045201 TATTTTTAAAA
1 TATTTTTAAAA
1045212 TACTTTTT
1 TA-TTTTT
1045220 TTTATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:1045238 original size:20 final size:21
Alignment explanation
Indices: 1045201--1045240 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1045191 ATTTTTAAAA
1045201 TATTTTTAAAATACTTTTTTT
1 TATTTTTAAAATACTTTTTTT
1045222 TATTTTTAAAAT--TTTTTTT
1 TATTTTTAAAATACTTTTTTT
1045241 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
21 12 0.63
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (21 bp):
TATTTTTAAAATACTTTTTTT
Found at i:1046055 original size:20 final size:21
Alignment explanation
Indices: 1046032--1046075 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
1046022 TTTTTAAAAG
*
1046032 AAATTATAAAAAAA-ATTAAA
1 AAATTAGAAAAAAATATTAAA
1046052 AAATTAGAAAAAAATATTAAA
1 AAATTAGAAAAAAATATTAAA
1046073 AAA
1 AAA
1046076 AGGTTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (21 bp):
AAATTAGAAAAAAATATTAAA
Found at i:1046639 original size:75 final size:76
Alignment explanation
Indices: 1046554--1046712 Score: 302
Period size: 75 Copynumber: 2.1 Consensus size: 76
1046544 TTTCTATAAC
*
1046554 TGAAACATGAAAAATAAAATAATTTTATATTAATATGGGTTCAAATCGAATATTAGATTTTATAT
1 TGAAAAATGAAAAATAAAATAATTTTATATTAATATGGGTTCAAATCGAATATTAGATTTTATAT
1046619 TTAAATA-AGT
66 TTAAATATAGT
1046629 TGAAAAATGAAAAATAAAATAATTTTATATTAATATGGGTTCAAATCGAATATTAGATTTTATAT
1 TGAAAAATGAAAAATAAAATAATTTTATATTAATATGGGTTCAAATCGAATATTAGATTTTATAT
1046694 TTAAATATAGT
66 TTAAATATAGT
1046705 TGAAAAAT
1 TGAAAAAT
1046713 TAATATTTTC
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
75 71 0.87
76 11 0.13
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.38
Consensus pattern (76 bp):
TGAAAAATGAAAAATAAAATAATTTTATATTAATATGGGTTCAAATCGAATATTAGATTTTATAT
TTAAATATAGT
Found at i:1054651 original size:115 final size:115
Alignment explanation
Indices: 1054449--1054676 Score: 411
Period size: 115 Copynumber: 2.0 Consensus size: 115
1054439 GGGTCGATCT
*
1054449 ATTAAGGCTAACACAAGGCAGCATGAGTGGACACTGCCCCCATGATCGGGCCCTGGACCATCAAA
1 ATTAAGGCTAACACAAGGCAGCATGAGTAGACACTGCCCCCATGATCGGGCCCTGGACCATCAAA
1054514 TCATTGTTTCCTCTCCTCTTTTCCATCACCACCATGATCAACTTCCATCA
66 TCATTGTTTCCTCTCCTCTTTTCCATCACCACCATGATCAACTTCCATCA
* * *
1054564 ATTAAGGGTAACACAAGGCAGCATGAGTAGACATTGTCCCCATGATCGGGCCCTGGACCATCAAA
1 ATTAAGGCTAACACAAGGCAGCATGAGTAGACACTGCCCCCATGATCGGGCCCTGGACCATCAAA
*
1054629 TCATTGTTTCCTCTCCTCTTTTCCATCACCACCATGATCAATTTCCAT
66 TCATTGTTTCCTCTCCTCTTTTCCATCACCACCATGATCAACTTCCAT
1054677 GGTATCACAT
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
115 108 1.00
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (115 bp):
ATTAAGGCTAACACAAGGCAGCATGAGTAGACACTGCCCCCATGATCGGGCCCTGGACCATCAAA
TCATTGTTTCCTCTCCTCTTTTCCATCACCACCATGATCAACTTCCATCA
Found at i:1062417 original size:31 final size:31
Alignment explanation
Indices: 1062382--1062454 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
1062372 TTAACAGTAA
* *
1062382 AGTGACTTGAATAAAAACTTTTGAATAGTTC
1 AGTGACTTAAATAAAAACTTTTAAATAGTTC
1062413 AGTGACTTAAATAAAAACTTTTAAATAGTTC
1 AGTGACTTAAATAAAAACTTTTAAATAGTTC
*
1062444 AATGAC-TAAAT
1 AGTGACTTAAAT
1062455 TGTAACTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.13
31 34 0.87
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTTAAATAGTTC
Found at i:1063562 original size:9 final size:9
Alignment explanation
Indices: 1063548--1063685 Score: 57
Period size: 9 Copynumber: 14.0 Consensus size: 9
1063538 TTAAAATACT
1063548 TTTTTTAAA
1 TTTTTTAAA
1063557 TTTTTTAAA
1 TTTTTTAAA
1063566 --TTTTAAA
1 TTTTTTAAA
1063573 CTTTTTTTAAAA
1 --TTTTTT-AAA
1063585 TACTTTTTAAAATA
1 T--TTTTT--AA-A
*
1063599 TTTTTTTAA
1 TTTTTTAAA
*
1063608 TTTTTTTAA
1 TTTTTTAAA
*
1063617 TTTTTTTAA
1 TTTTTTAAA
*
1063626 -TTTTAAAA
1 TTTTTTAAA
*
1063634 TATTTTAAAAA
1 T-TTTT-TAAA
1063645 TATTTTTAAAATA
1 T-TTTTT--AA-A
*
1063658 CTTTTTTTAA
1 -TTTTTTAAA
1063668 TTTTTTAAA
1 TTTTTTAAA
*
1063677 ATTTTTAAA
1 TTTTTTAAA
1063686 ATAAAAATGG
Statistics
Matches: 106, Mismatches: 7, Indels: 32
0.73 0.05 0.22
Matches are distributed among these distances:
7 7 0.07
8 6 0.06
9 44 0.42
10 7 0.07
11 15 0.14
12 15 0.14
13 9 0.08
14 3 0.03
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:1063562 original size:30 final size:27
Alignment explanation
Indices: 1063526--1063583 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 27
1063516 ATTATTTTTT
*
1063526 ATTTTTTCAATTTTAAAATACTTTTTTTAA
1 ATTTTTTAAATTTT--AA-ACTTTTTTTAA
1063556 ATTTTTTAAATTTTAAACTTTTTTTAA
1 ATTTTTTAAATTTTAAACTTTTTTTAA
1063583 A
1 A
1063584 ATACTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 12 0.44
28 2 0.07
30 13 0.48
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.60
Consensus pattern (27 bp):
ATTTTTTAAATTTTAAACTTTTTTTAA
Found at i:1063619 original size:60 final size:60
Alignment explanation
Indices: 1063547--1063685 Score: 199
Period size: 60 Copynumber: 2.3 Consensus size: 60
1063537 TTTAAAATAC
* * *
1063547 TTTTTTTAAATTTTTTAAATTTTAAACTTTTTTTAAAATACTTTTTAAAATA-TTTTTTTAA
1 TTTTTTT-AATTTTTTAAATTTTAAAATATTTTAAAAATA-TTTTTAAAATACTTTTTTTAA
*
1063608 TTTTTTTAATTTTTTTAATTTTAAAATATTTTAAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTTTTAATTTTTTAAATTTTAAAATATTTTAAAAATATTTTTAAAATACTTTTTTTAA
* *
1063668 TTTTTTAAAATTTTTAAA
1 TTTTTTTAATTTTTTAAA
1063686 ATAAAAATGG
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
59 11 0.16
60 52 0.74
61 7 0.10
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (60 bp):
TTTTTTTAATTTTTTAAATTTTAAAATATTTTAAAAATATTTTTAAAATACTTTTTTTAA
Found at i:1063646 original size:11 final size:10
Alignment explanation
Indices: 1063625--1063688 Score: 58
Period size: 10 Copynumber: 6.1 Consensus size: 10
1063615 AATTTTTTTA
1063625 ATTTTAAAAT
1 ATTTTAAAAT
1063635 ATTTTAAAAAT
1 ATTTT-AAAAT
1063646 ATTTTTAAAAT
1 A-TTTTAAAAT
**
1063657 ACTTTTTTTAAT
1 A--TTTTAAAAT
*
1063669 TTTTTAAAAT
1 ATTTTAAAAT
1063679 -TTTTAAAAT
1 ATTTTAAAAT
1063688 A
1 A
1063689 AAAATGGGCC
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
9 9 0.20
10 12 0.27
11 12 0.27
12 12 0.27
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:1063662 original size:12 final size:11
Alignment explanation
Indices: 1063566--1063688 Score: 77
Period size: 11 Copynumber: 11.9 Consensus size: 11
1063556 ATTTTTTAAA
* *
1063566 TTTTAAACTTT
1 TTTTAAAATAT
1063577 TTTTAAAATACT
1 TTTTAAAATA-T
1063589 TTTTAAAATAT
1 TTTTAAAATAT
**
1063600 TTTTTTAAT-T
1 TTTTAAAATAT
*
1063610 TTTT-TAAT-T
1 TTTTAAAATAT
*
1063619 TTTT----TAA
1 TTTTAAAATAT
1063626 TTTTAAAATAT
1 TTTTAAAATAT
*
1063637 TTTAAAAATAT
1 TTTTAAAATAT
1063648 TTTTAAAATACT
1 TTTTAAAATA-T
**
1063660 TTTTTTAAT-T
1 TTTTAAAATAT
1063670 TTTT-AAA-AT
1 TTTTAAAATAT
1063679 TTTTAAAATA
1 TTTTAAAATA
1063689 AAAATGGGCC
Statistics
Matches: 91, Mismatches: 11, Indels: 20
0.75 0.09 0.16
Matches are distributed among these distances:
6 1 0.01
7 4 0.04
9 16 0.18
10 13 0.14
11 38 0.42
12 19 0.21
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:1065837 original size:25 final size:22
Alignment explanation
Indices: 1065793--1065838 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1065783 AATACCCTTC
*
1065793 AAAATAATATAATTTACATTAT
1 AAAATAATATAATTAACATTAT
1065815 AAAATAATAATAATCTAATCATTA
1 AAAATAAT-ATAAT-TAA-CATTA
1065839 CGTAACTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 8 0.40
23 5 0.25
24 2 0.10
25 5 0.25
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAATAATATAATTAACATTAT
Found at i:1066182 original size:11 final size:11
Alignment explanation
Indices: 1066163--1066200 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
1066153 AAAAATTAAA
1066163 AAAAGTATTTTT
1 AAAA-TATTTTT
1066175 AAAATATTTTT
1 AAAATATTTTT
1066186 AAAATA-TTTT
1 AAAATATTTTT
1066196 AAAAT
1 AAAAT
1066201 TAAAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 9 0.35
11 13 0.50
12 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:1066200 original size:10 final size:10
Alignment explanation
Indices: 1066137--1066200 Score: 58
Period size: 11 Copynumber: 6.1 Consensus size: 10
1066127 NNNNCATTTT
1066137 TATTTTAAAA
1 TATTTTAAAA
1066147 -ATTTTAAAA
1 TATTTTAAAA
* **
1066156 AATTAAAAAAA
1 TATT-TTAAAA
1066167 GTATTTTTAAAA
1 -TA-TTTTAAAA
1066179 TATTTTTAAAA
1 TA-TTTTAAAA
1066190 TATTTTAAAA
1 TATTTTAAAA
1066200 T
1 T
1066201 TAAAAAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
9 9 0.20
10 12 0.27
11 17 0.38
12 5 0.11
13 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (10 bp):
TATTTTAAAA
Found at i:1066212 original size:52 final size:52
Alignment explanation
Indices: 1066137--1066259 Score: 160
Period size: 52 Copynumber: 2.3 Consensus size: 52
1066127 NNNNCATTTT
** *
1066137 TATTTTAAAAATTTTAAAAAATT-AAAAAAAGTATTTTTAAAATATTTTTAAAA
1 TATTTT-AAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAATA-TTTTAAAA
1066190 TATTTTAAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAA
1 TATTTTAAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAA
**
1066242 T-TTAAAAAAATTAAAAAA
1 TATT-TTAAAATTAAAAAA
1066260 GTATGTAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 2 0.03
52 35 0.56
53 26 0.41
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (52 bp):
TATTTTAAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAA
Found at i:1066260 original size:40 final size:41
Alignment explanation
Indices: 1066175--1066291 Score: 168
Period size: 42 Copynumber: 2.9 Consensus size: 41
1066165 AAGTATTTTT
* *
1066175 AAAA-TATTTTTAAAATATTTTAAAATTAAAAAAAATTAAAA
1 AAAAGTATTTTAAAAATATTTTAAAATTTAAAAAAATT-AAA
1066216 AAAAGTATTTTAAAAATATTTTAAAATTTAAAAAAATT-AA
1 AAAAGTATTTTAAAAATATTTTAAAATTTAAAAAAATTAAA
* *
1066256 AAAAGTATGTAAAAAATATTTTAAAA-TTAAAAAAAT
1 AAAAGTATTTTAAAAATATTTTAAAATTTAAAAAAAT
1066292 AAATATATTT
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
39 10 0.14
40 26 0.37
41 4 0.06
42 31 0.44
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (41 bp):
AAAAGTATTTTAAAAATATTTTAAAATTTAAAAAAATTAAA
Found at i:1068739 original size:12 final size:12
Alignment explanation
Indices: 1068722--1068746 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1068712 TTAACAAGTT
1068722 GGATTTAAAAAG
1 GGATTTAAAAAG
1068734 GGATTTAAAAAG
1 GGATTTAAAAAG
1068746 G
1 G
1068747 ACCCTATGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (12 bp):
GGATTTAAAAAG
Found at i:1070611 original size:18 final size:16
Alignment explanation
Indices: 1070588--1070626 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
1070578 CCTTCCAATC
*
1070588 TTTTAATGATTTTTTTCA
1 TTTTAAT-ATTTTATT-A
1070606 TTTTAATATTTTATTA
1 TTTTAATATTTTATTA
1070622 TTTTA
1 TTTTA
1070627 TCTCAAACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 7 0.35
18 7 0.35
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTTAATATTTTATTA
Found at i:1071184 original size:30 final size:32
Alignment explanation
Indices: 1071115--1071187 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
1071105 TCAAAATATT
* *
1071115 AAAAATATTTAATT-AAGCCTCTTTAAATTTTA
1 AAAAAT-TTTAATTAAATCCTCTTCAAATTTTA
*
1071147 AAAAATTTTAATTAAATCCTC-TCAAATTTTG
1 AAAAATTTTAATTAAATCCTCTTCAAATTTTA
*
1071178 AAAATTTTTA
1 AAAAATTTTA
1071188 TAAATCTCGC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 24 0.67
32 12 0.33
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.44
Consensus pattern (32 bp):
AAAAATTTTAATTAAATCCTCTTCAAATTTTA
Found at i:1071204 original size:29 final size:31
Alignment explanation
Indices: 1071139--1071200 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
1071129 AAGCCTCTTT
*
1071139 AAATTTTAAAAAATTTTAATTAAATCCTCTC
1 AAATTTTAAAAAATTTTAATTAAATCCTCGC
* *
1071170 AAATTTT-GAAAATTTTTA-TAAAT-CTCGC
1 AAATTTTAAAAAATTTTAATTAAATCCTCGC
1071198 AAA
1 AAA
1071201 ATTTCAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 7 0.25
29 5 0.18
30 9 0.32
31 7 0.25
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.40
Consensus pattern (31 bp):
AAATTTTAAAAAATTTTAATTAAATCCTCGC
Found at i:1077697 original size:13 final size:13
Alignment explanation
Indices: 1077676--1077741 Score: 89
Period size: 13 Copynumber: 5.1 Consensus size: 13
1077666 TTTAAACCAA
1077676 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
1077689 A-TTTCTCAAAAGC
1 ACTTT-TCAAAAGC
* *
1077702 ACTTTTCCAGAGC
1 ACTTTTCAAAAGC
*
1077715 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
1077728 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
1077741 A
1 A
1077742 ATAAAGAACT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
12 3 0.07
13 39 0.87
14 3 0.07
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:1091916 original size:22 final size:22
Alignment explanation
Indices: 1091881--1091948 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
1091871 CCTGGCCCGT
1091881 TTTTAATTAAAATTAAAATTATA
1 TTTTAA-TAAAATTAAAATTATA
*
1091904 TTTTAATAAAATTAAAACTA-A
1 TTTTAATAAAATTAAAATTATA
*
1091925 TTGTTAGTAAAATTATCAAATTAT
1 TT-TTAATAAAATTA--AAATTAT
1091949 TAATTATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
21 3 0.08
22 24 0.63
23 6 0.16
24 5 0.13
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (22 bp):
TTTTAATAAAATTAAAATTATA
Found at i:1099569 original size:27 final size:28
Alignment explanation
Indices: 1099524--1099579 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
1099514 AAATGAATGG
* **
1099524 ATAATTAGTTGTATTTATTA-AATATAA
1 ATAATTAGTTCTAGCTATTATAATATAA
*
1099551 ATAATTAGTTCTAGCTATTATACTATAA
1 ATAATTAGTTCTAGCTATTATAATATAA
1099579 A
1 A
1099580 GAAATAAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (28 bp):
ATAATTAGTTCTAGCTATTATAATATAA
Found at i:1104727 original size:72 final size:72
Alignment explanation
Indices: 1104634--1104852 Score: 366
Period size: 72 Copynumber: 3.0 Consensus size: 72
1104624 AACCTCTTCC
* * * *
1104634 ACCACCGGTTTATAAGCCTCATCCGGTGCCGGTCTACAAGAAACCACTCCCTCCGCCGGTTCCTG
1 ACCACCGGTTTATAAGCCTCATCCGGTGCCGGTCTACAAGAAGCCGCTTCCACCGCCGGTTCCTG
1104699 TCTACAA
66 TCTACAA
1104706 ACCACCGGTTTATAAGCCTCATCCGGTGCCGGTCTACAAGAAGCCGCTTCCACCGCCGGTTCCTG
1 ACCACCGGTTTATAAGCCTCATCCGGTGCCGGTCTACAAGAAGCCGCTTCCACCGCCGGTTCCTG
1104771 TCTACAA
66 TCTACAA
* * *
1104778 ACCACCGGTTTATAAGCCTCATCCGGTGCCGGTTTATAAGAAGCCGCTTCCACCGCCGGTTCCTA
1 ACCACCGGTTTATAAGCCTCATCCGGTGCCGGTCTACAAGAAGCCGCTTCCACCGCCGGTTCCTG
*
1104843 TTTACAA
66 TCTACAA
1104850 ACC
1 ACC
1104853 GAAACCCTTC
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 139 1.00
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.23
Consensus pattern (72 bp):
ACCACCGGTTTATAAGCCTCATCCGGTGCCGGTCTACAAGAAGCCGCTTCCACCGCCGGTTCCTG
TCTACAA
Found at i:1104743 original size:39 final size:39
Alignment explanation
Indices: 1104689--1104810 Score: 98
Period size: 39 Copynumber: 3.3 Consensus size: 39
1104679 ACTCCCTCCG
* *
1104689 CCGGTTCCTGTCTACAAACCACCGGTTTATAAGCCTCAT
1 CCGGTGCCGGTCTACAAACCACCGGTTTATAAGCCTCAT
* * **
1104728 CCGGTGCCGGTCTACAAGA--AGCC-G-CT-T---CCACCG
1 CCGGTGCCGGTCTACAA-ACCA-CCGGTTTATAAGCCTCAT
* *
1104761 CCGGTTCCTGTCTACAAACCACCGGTTTATAAGCCTCAT
1 CCGGTGCCGGTCTACAAACCACCGGTTTATAAGCCTCAT
1104800 CCGGTGCCGGT
1 CCGGTGCCGGT
1104811 TTATAAGAAG
Statistics
Matches: 59, Mismatches: 14, Indels: 20
0.63 0.15 0.22
Matches are distributed among these distances:
32 1 0.02
33 20 0.34
34 2 0.03
35 1 0.02
36 2 0.03
37 1 0.02
38 2 0.03
39 29 0.49
40 1 0.02
ACGTcount: A:0.20, C:0.35, G:0.21, T:0.24
Consensus pattern (39 bp):
CCGGTGCCGGTCTACAAACCACCGGTTTATAAGCCTCAT
Found at i:1109083 original size:13 final size:13
Alignment explanation
Indices: 1109065--1109095 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
1109055 ATATTACAAG
1109065 GAAAAGTCAAAAA
1 GAAAAGTCAAAAA
1109078 GAAAAGTCAAAAA
1 GAAAAGTCAAAAA
1109091 GAAAA
1 GAAAA
1109096 CTGCTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.71, C:0.06, G:0.16, T:0.06
Consensus pattern (13 bp):
GAAAAGTCAAAAA
Found at i:1109634 original size:2 final size:2
Alignment explanation
Indices: 1109629--1109655 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1109619 TTTTTCTATT
1109629 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1109656 TTGTATATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1113587 original size:32 final size:32
Alignment explanation
Indices: 1113546--1113609 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
1113536 ATTTCAAGGC
1113546 ACTGATACTTTACGTAAAATACGATACTTGGG
1 ACTGATACTTTACGTAAAATACGATACTTGGG
*
1113578 ACTGATACTTTACGTAAAATATGATACTTGGG
1 ACTGATACTTTACGTAAAATACGATACTTGGG
1113610 TGTGTATCGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (32 bp):
ACTGATACTTTACGTAAAATACGATACTTGGG
Found at i:1121799 original size:24 final size:25
Alignment explanation
Indices: 1121747--1121799 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
1121737 TAGCCCTCTC
* * *
1121747 GAGCTTCCCGTTATATGGTTCTTAT
1 GAGCTTCCCGTTATATAGCTCTTAG
*
1121772 GAGCTTCCCGTTA-ATAGCTCTTCG
1 GAGCTTCCCGTTATATAGCTCTTAG
1121796 GAGC
1 GAGC
1121800 ATCAGGATCG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGCTCTTAG
Found at i:1121887 original size:26 final size:25
Alignment explanation
Indices: 1121844--1121900 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
1121834 GCACACTACA
*
1121844 GCTCTTATGAGCGCCCCG-TTATATG
1 GCTCTTATGAGCGCCCCGATTA-AAG
**
1121869 GCTCTTCATGAGCTTCCCGATTAAAG
1 GCTCTT-ATGAGCGCCCCGATTAAAG
1121895 GCTCTT
1 GCTCTT
1121901 TGTGAACTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 6 0.22
26 18 0.67
27 3 0.11
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.33
Consensus pattern (25 bp):
GCTCTTATGAGCGCCCCGATTAAAG
Found at i:1129384 original size:3 final size:3
Alignment explanation
Indices: 1129372--1129438 Score: 120
Period size: 3 Copynumber: 23.0 Consensus size: 3
1129362 ACAATGTTAA
1129372 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1129418 TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
1129439 CAATTTTACA
Statistics
Matches: 62, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.06
3 58 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1134421 original size:30 final size:32
Alignment explanation
Indices: 1134357--1134433 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
1134347 AAATGTTAAA
* * *
1134357 TTAATAATGAT-AAAATTATACTTTAGTCTTT
1 TTAAAAATGATAAAAATTATAATTTAATCTTT
1134388 TTAAAAATGATAAAAATT-TAATTTAAT-TTT
1 TTAAAAATGATAAAAATTATAATTTAATCTTT
*
1134418 TTAAAAGTCGATAAAA
1 TTAAAAAT-GATAAAA
1134434 CCTATTCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
30 10 0.25
31 24 0.60
32 6 0.15
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (32 bp):
TTAAAAATGATAAAAATTATAATTTAATCTTT
Found at i:1134751 original size:50 final size:48
Alignment explanation
Indices: 1134687--1134811 Score: 135
Period size: 47 Copynumber: 2.6 Consensus size: 48
1134677 CCGAACTCAT
* * *
1134687 AACTTAATTAGGATTATGAAAATTATATTTTATAAATATATATTAGCTAG
1 AACTGAATTAGGATTACGAAAATTATATTCTAT--ATATATATTAGCTAG
* * * * *
1134737 AATTGAATTAGGATTAGGAAAATTATA-TCTATATATTTTTTAGTTAG
1 AACTGAATTAGGATTACGAAAATTATATTCTATATATATATTAGCTAG
* *
1134784 AACTGAATTAAGATCACGAAAATTATAT
1 AACTGAATTAGGATTACGAAAATTATAT
1134812 ATAGAGTTCA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
47 35 0.56
49 4 0.06
50 24 0.38
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (48 bp):
AACTGAATTAGGATTACGAAAATTATATTCTATATATATATTAGCTAG
Found at i:1134862 original size:6 final size:6
Alignment explanation
Indices: 1134851--1134884 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
1134841 TAAGTTAGAG
1134851 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAA
1134885 ATGTCGATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:1139287 original size:35 final size:35
Alignment explanation
Indices: 1139248--1139315 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
1139238 ACACACTATC
1139248 TTAGAACTT-AATTAGGATTACGAAAATTATATTAG
1 TTAGAA-TTGAATTAGGATTACGAAAATTATATTAG
*
1139283 TTAGAATTGAATTAGGATTATGAAAATTATATT
1 TTAGAATTGAATTAGGATTACGAAAATTATATT
1139316 TATATATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 2 0.06
35 29 0.94
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.40
Consensus pattern (35 bp):
TTAGAATTGAATTAGGATTACGAAAATTATATTAG
Found at i:1140763 original size:108 final size:108
Alignment explanation
Indices: 1140641--1140871 Score: 401
Period size: 108 Copynumber: 2.1 Consensus size: 108
1140631 TTTAGAAAGA
* * *
1140641 ATTTACTTACTTTTTTATAAGATAAAATACACATAAATT-TCAATTTTAATTGTAACGCTAACAT
1 ATTTACTTACTTTTTTATAAGATAAAATACACATAAATTATC-ATATTAACTGTAACACTAACAT
1140705 AATTAAAAGATTAATATTTTAGGTAGTACTTCGTTAAACAAAAT
65 AATTAAAAGATTAATATTTTAGGTAGTACTTCGTTAAACAAAAT
1140749 ATTTACTTACTTTTTTATAAGATAAAATACACATAAATTATCATATTAACTGTAACACTAACATA
1 ATTTACTTACTTTTTTATAAGATAAAATACACATAAATTATCATATTAACTGTAACACTAACATA
1140814 ATTAAAAGATTAATATTTTAGGTAGTACTTCGTTAAACAAAAT
66 ATTAAAAGATTAATATTTTAGGTAGTACTTCGTTAAACAAAAT
*
1140857 ATTTAACTTCCTTTT
1 ATTT-ACTTACTTTT
1140872 AAAGTTTAAT
Statistics
Matches: 117, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
108 106 0.91
109 11 0.09
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.40
Consensus pattern (108 bp):
ATTTACTTACTTTTTTATAAGATAAAATACACATAAATTATCATATTAACTGTAACACTAACATA
ATTAAAAGATTAATATTTTAGGTAGTACTTCGTTAAACAAAAT
Found at i:1142619 original size:35 final size:35
Alignment explanation
Indices: 1142580--1142647 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
1142570 ACACACTATC
1142580 TTAGAACTT-AATTAGGATTACGAAAATTATATTAG
1 TTAGAA-TTGAATTAGGATTACGAAAATTATATTAG
*
1142615 TTAGAATTGAATTAGGATTATGAAAATTATATT
1 TTAGAATTGAATTAGGATTACGAAAATTATATT
1142648 TATATATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 2 0.06
35 29 0.94
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.40
Consensus pattern (35 bp):
TTAGAATTGAATTAGGATTACGAAAATTATATTAG
Found at i:1145057 original size:2 final size:2
Alignment explanation
Indices: 1145050--1145097 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
1145040 TATGTTTAAC
* * *
1145050 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA CA TA TG TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1145091 TA TA TA T
1 TA TA TA T
1145098 TGTTTATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1145297 original size:20 final size:21
Alignment explanation
Indices: 1145265--1145313 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
1145255 CCTAATTCAT
1145265 TATTGAAAA-TAAT-ATTAAAA
1 TATT-AAAATTAATAATTAAAA
1145285 TATTAAAATTAATAATTAAAA
1 TATTAAAATTAATAATTAAAA
1145306 -A-TAAAATT
1 TATTAAAATT
1145314 TTGTACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 11 0.41
20 9 0.33
21 7 0.26
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
TATTAAAATTAATAATTAAAA
Found at i:1156919 original size:10 final size:10
Alignment explanation
Indices: 1156904--1156928 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1156894 AAATATATAA
1156904 TAAAATAAGG
1 TAAAATAAGG
1156914 TAAAATAAGG
1 TAAAATAAGG
1156924 TAAAA
1 TAAAA
1156929 CATGTTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (10 bp):
TAAAATAAGG
Found at i:1172502 original size:234 final size:234
Alignment explanation
Indices: 1172087--1172554 Score: 801
Period size: 234 Copynumber: 2.0 Consensus size: 234
1172077 CCCCTAGACA
*
1172087 CAGCAATAGACAAAATAACTCTGATAGTAGCCGGTTTTACCACCGGGCTAAATGTTTCCTTAAAA
1 CAGCAATAGACAAAATAACTCTGATAGTAGCCGGTTTTACCACCGGGCTAAACGTTTCCTTAAAA
* * ** * *
1172152 TCACAACCTGGAATCTGAGAGCAGCCTTTTGTGACTAATCGAGCCTTATGGCGAGCAATAGTGCC
66 TCACAACCTGGAACCTGAGAGCAGCCTTTCGCAACTAAGCGAGCCTTATGGCGAGCAATAGTACC
* *
1172217 ATCAGAATTCCTCTTAATTCTGAACAACCATTTGCATCCTATAACCTTACGACTAGATGGAGCAG
131 ATCAGAATTCCTCTTAATCCTGAACAACCATTTGCATCCTATAACCTTACGACTAGACGGAGCAG
*
1172282 AGACTAGCTCCCATGTGGAATTGCGCATAAGAGCATCAT
196 AAACTAGCTCCCATGTGGAATTGCGCATAAGAGCATCAT
* *
1172321 CAGCAATAGACAGAATAACTCTGATAGTAGTCGGTTTTACCACCGGGCTAAACGTTTCCTTAAAA
1 CAGCAATAGACAAAATAACTCTGATAGTAGCCGGTTTTACCACCGGGCTAAACGTTTCCTTAAAA
1172386 TCACAACCTGGAACCTGAGAGCAGCCTTTCGCAACTAAGCGAGCCTTATGGCGAGCAATAGTACC
66 TCACAACCTGGAACCTGAGAGCAGCCTTTCGCAACTAAGCGAGCCTTATGGCGAGCAATAGTACC
* * *
1172451 ATCAGAATTCCTCTTAATCCTGAACAACCATTTGCATCCTATAATCTTACGATTAGACGGAGCTG
131 ATCAGAATTCCTCTTAATCCTGAACAACCATTTGCATCCTATAACCTTACGACTAGACGGAGCAG
1172516 AAACTAGCTCCCATGTGGAATTGCGCATAAGAGCATCAT
196 AAACTAGCTCCCATGTGGAATTGCGCATAAGAGCATCAT
1172555 ACTCATCTTG
Statistics
Matches: 219, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
234 219 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (234 bp):
CAGCAATAGACAAAATAACTCTGATAGTAGCCGGTTTTACCACCGGGCTAAACGTTTCCTTAAAA
TCACAACCTGGAACCTGAGAGCAGCCTTTCGCAACTAAGCGAGCCTTATGGCGAGCAATAGTACC
ATCAGAATTCCTCTTAATCCTGAACAACCATTTGCATCCTATAACCTTACGACTAGACGGAGCAG
AAACTAGCTCCCATGTGGAATTGCGCATAAGAGCATCAT
Found at i:1178824 original size:19 final size:19
Alignment explanation
Indices: 1178800--1178837 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1178790 ATCCTGAACT
*
1178800 TTGAACCCCGACCTTAAAC
1 TTGAACCCCGAACTTAAAC
*
1178819 TTGAACCTCGAACTTAAAC
1 TTGAACCCCGAACTTAAAC
1178838 CCTGATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.11, T:0.24
Consensus pattern (19 bp):
TTGAACCCCGAACTTAAAC
Found at i:1178914 original size:20 final size:22
Alignment explanation
Indices: 1178873--1178920 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
1178863 ATTTGAACCA
1178873 CAAACTCAAAATCATGAACCCT
1 CAAACTCAAAATCATGAACCCT
* *
1178895 -AAACTCCAAA-CATGACCCCT
1 CAAACTCAAAATCATGAACCCT
1178915 CAAACT
1 CAAACT
1178921 TGAACTAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.44, C:0.35, G:0.04, T:0.17
Consensus pattern (22 bp):
CAAACTCAAAATCATGAACCCT
Found at i:1180922 original size:24 final size:24
Alignment explanation
Indices: 1180888--1180933 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
1180878 ATAAACTTAA
1180888 ATGAAAAGTCAAGAGTTATGTTGG
1 ATGAAAAGTCAAGAGTTATGTTGG
*
1180912 ATGAAAGGTCAAGAGTTATGTT
1 ATGAAAAGTCAAGAGTTATGTT
1180934 TTTTTAATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.37, C:0.04, G:0.28, T:0.30
Consensus pattern (24 bp):
ATGAAAAGTCAAGAGTTATGTTGG
Found at i:1185238 original size:24 final size:24
Alignment explanation
Indices: 1185203--1185249 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
1185193 AATAAACTTC
1185203 AATGAAAAGTCAAGAGTTATGTTA
1 AATGAAAAGTCAAGAGTTATGTTA
* *
1185227 AATGAAAGGTCAAGAGTTCTGTT
1 AATGAAAAGTCAAGAGTTATGTT
1185250 TTTTTAATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.30
Consensus pattern (24 bp):
AATGAAAAGTCAAGAGTTATGTTA
Found at i:1188218 original size:28 final size:26
Alignment explanation
Indices: 1188186--1188245 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
1188176 TTATTTCAGA
1188186 TTATTTACGTAATTAATTAAAAAATAAG
1 TTATTTACGTAATTAA-TAAAAAA-AAG
** *
1188214 TTATTTTTGTAATTAATAAAAAAAGG
1 TTATTTACGTAATTAATAAAAAAAAG
1188240 TTATTT
1 TTATTT
1188246 TTATAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 8 0.28
27 7 0.24
28 14 0.48
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (26 bp):
TTATTTACGTAATTAATAAAAAAAAG
Found at i:1188242 original size:26 final size:28
Alignment explanation
Indices: 1188194--1188247 Score: 85
Period size: 26 Copynumber: 2.0 Consensus size: 28
1188184 GATTATTTAC
1188194 GTAATTAATTAAAAAATAAGTTATTTTT
1 GTAATTAATTAAAAAATAAGTTATTTTT
*
1188222 GTAATTAA-TAAAAAA-AGGTTATTTTT
1 GTAATTAATTAAAAAATAAGTTATTTTT
1188248 ATAAAAATGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 10 0.40
27 7 0.28
28 8 0.32
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.44
Consensus pattern (28 bp):
GTAATTAATTAAAAAATAAGTTATTTTT
Found at i:1192360 original size:20 final size:21
Alignment explanation
Indices: 1192327--1192371 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
1192317 TTCTTTTTAA
1192327 AAAAATTCTCACTAAA-CTTTT
1 AAAAATTCTCACTAAATC-TTT
*
1192348 AAAAATT-TTACTAAATCTTT
1 AAAAATTCTCACTAAATCTTT
1192368 AAAA
1 AAAA
1192372 TTTAATTCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAATTCTCACTAAATCTTT
Found at i:1195566 original size:3 final size:3
Alignment explanation
Indices: 1195551--1195599 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
1195541 CCTAACAAAT
*
1195551 ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1195599 A
1 A
1195600 ATAAATGTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1195740 original size:3 final size:3
Alignment explanation
Indices: 1195732--1195771 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
1195722 ATATAAAATG
1195732 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1195772 ATCTTCCGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1199317 original size:15 final size:15
Alignment explanation
Indices: 1199299--1199332 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1199289 CACTGAATTA
1199299 CCCAATACACC-CCAG
1 CCCAATA-ACCACCAG
1199314 CCCAATAACCACCAG
1 CCCAATAACCACCAG
1199329 CCCA
1 CCCA
1199333 GTGCAGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.35, C:0.53, G:0.06, T:0.06
Consensus pattern (15 bp):
CCCAATAACCACCAG
Found at i:1200522 original size:21 final size:22
Alignment explanation
Indices: 1200496--1200543 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
1200486 ATGAATGTTG
1200496 TTTAAATTTATCACAT-ATTAT
1 TTTAAATTTATCACATAATTAT
*
1200517 TTTAAATTTATCATATAATTAT
1 TTTAAATTTATCACATAATTAT
1200539 TTTAA
1 TTTAA
1200544 GTTTTTATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTAAATTTATCACATAATTAT
Found at i:1200597 original size:23 final size:23
Alignment explanation
Indices: 1200545--1200600 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
1200535 TTATTTTAAG
1200545 TTTTTATGTATCATTCTTCAAAT
1 TTTTTATGTATCATTCTTCAAAT
* * *
1200568 TTATTATGTATTATTCTAT-ATAT
1 TTTTTATGTATCATTCT-TCAAAT
1200591 TTTTTATGTA
1 TTTTTATGTA
1200601 AATTTAATAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 27 0.96
24 1 0.04
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTTTATGTATCATTCTTCAAAT
Found at i:1205000 original size:20 final size:20
Alignment explanation
Indices: 1204977--1205021 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
1204967 ATACTATTAT
*
1204977 TATTCA-TGACATGACCCTAC
1 TATTCATTGAC-TGACCCCAC
*
1204997 TATTCATTGACTTACCCCAC
1 TATTCATTGACTGACCCCAC
1205017 TATTC
1 TATTC
1205022 CTAGGACTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.27, C:0.31, G:0.07, T:0.36
Consensus pattern (20 bp):
TATTCATTGACTGACCCCAC
Found at i:1209571 original size:22 final size:22
Alignment explanation
Indices: 1209541--1209583 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1209531 ACACCAAAAC
*
1209541 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCATTTAGCGGCGCTTTTTT
1209563 AGGCATTTAGCGGCGCTTTTT
1 AGGCATTTAGCGGCGCTTTTT
1209584 AGCGCCGCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.12, C:0.19, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCATTTAGCGGCGCTTTTTT
Found at i:1209941 original size:87 final size:87
Alignment explanation
Indices: 1209847--1210113 Score: 376
Period size: 87 Copynumber: 3.1 Consensus size: 87
1209837 TTTTTTTCTC
1209847 AAACGCCGTAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAACCTAA
1 AAACGCCGTAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAACCTAA
*
1209912 TCTTTAGCGGCGCTTTCCCCTA
66 TCTTTAGCGGCGCTTTCCCCAA
*
1209934 AAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAACCTAA
1 AAACGCCGTAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAACCTAA
1209999 TCTTTAGCGGCGCTTTCCCCAA
66 TCTTTAGCGGCGCTTTCCCCAA
* * * * *** * * * *
1210021 AAACGCCGCTAA-AGACCATAATCTTTAGTGGCGCTTTTTCCAC-AAACGTCGCTAAAGACCCTT
1 AAACGCCG-TAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAACCTA
**
1210084 ATCTTTAGCGGCGCTTTGACCAA
65 ATCTTTAGCGGCGCTTTCCCCAA
1210107 AAACGCC
1 AAACGCC
1210114 ACTAAAGGCC
Statistics
Matches: 163, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
86 44 0.27
87 117 0.72
88 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.21
Consensus pattern (87 bp):
AAACGCCGTAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAACCTAA
TCTTTAGCGGCGCTTTCCCCAA
Found at i:1209965 original size:130 final size:130
Alignment explanation
Indices: 1209867--1210120 Score: 338
Period size: 130 Copynumber: 2.0 Consensus size: 130
1209857 ATAGACCCTG
1209867 ATCTATAGCGGCGC-TTCGACCACAAAACGCCACTAAAGAACC-TAATCTTTAGCGGCGCTTTCC
1 ATCTATAGCGGCGCTTTC-ACCA-AAAACGCCACTAAAG-ACCATAATCTTTAGCGGCGCTTTCC
1209930 CCTA-AAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGA
63 CC-ACAAACGCCGCTAA-AGACCCTGATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGA
1209993 ACCTA
126 ACCTA
* * * * **
1209998 ATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGACCATAATCTTTAGTGGCGCTTTTTCCA
1 ATCTATAGCGGCGCTTTCACCAAAAACGCCACTAAAGACCATAATCTTTAGCGGCGCTTTCCCCA
* * * *
1210063 CAAACGTCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCA-AAAACGCCACTAAAG
66 CAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAG
1210121 GCCAACACCT
Statistics
Matches: 109, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
129 19 0.17
130 69 0.63
131 18 0.17
132 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (130 bp):
ATCTATAGCGGCGCTTTCACCAAAAACGCCACTAAAGACCATAATCTTTAGCGGCGCTTTCCCCA
CAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAACCTA
Found at i:1210107 original size:86 final size:87
Alignment explanation
Indices: 1209886--1210161 Score: 319
Period size: 87 Copynumber: 3.2 Consensus size: 87
1209876 GGCGCTTCGA
*
1209886 CCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCTAAAACGCCGC-AATAGAC
1 CCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAA-AGAC
* * * * ***
1209950 CCTGATCTATAGCGGCGCTTCGA
65 CATAATCTTTAGTGGCGCTTTTT
1209973 CCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGACC
1 CCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGACC
1210038 ATAATCTTTAGTGGCGCTTTTT
66 ATAATCTTTAGTGGCGCTTTTT
* * * * ** * *
1210060 CCAC-AAACGTCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGGCC
1 CCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGACC
*
1210124 A-ACACCTTTAGTGGCG-TTTTT
66 ATA-ATCTTTAGTGGCGCTTTTT
* * *
1210145 -AAAAAAATGCCACTAAA
1 CCACAAAACGCCACTAAA
1210162 TTTGGCAGAT
Statistics
Matches: 164, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
84 1 0.01
85 16 0.10
86 65 0.40
87 80 0.49
88 2 0.01
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (87 bp):
CCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGACC
ATAATCTTTAGTGGCGCTTTTT
Found at i:1210111 original size:43 final size:43
Alignment explanation
Indices: 1209859--1210120 Score: 283
Period size: 43 Copynumber: 6.0 Consensus size: 43
1209849 ACGCCGTAAT
* * *
1209859 AGACCCTGATCTATAGCGGCGCTTCGACCACAAAACGCCACTAA
1 AGACCCTAATCTTTAGCGGCGCTTTGACCA-AAAACGCCACTAA
* ** * *
1209903 AGAACCTAATCTTTAGCGGCGCTTTCCCCTAAAACGCCGC-AA
1 AGACCCTAATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAA
* * *
1209945 TAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACGCCACTAA
1 -AGACCCTAATCTTTAGCGGCGCTTTGACCA-AAAACGCCACTAA
* ** *
1209990 AGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAA
1 AGACCCTAATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAA
* * ** * * *
1210033 AGACCATAATCTTTAGTGGCGCTTTTTCCACAAACGTCGCTAA
1 AGACCCTAATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAA
*
1210076 AGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAA
1 AGACCCTAATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAA
1210119 AG
1 AG
1210121 GCCAACACCT
Statistics
Matches: 177, Mismatches: 38, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
42 2 0.01
43 117 0.66
44 56 0.32
45 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.21
Consensus pattern (43 bp):
AGACCCTAATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAA
Found at i:1210133 original size:43 final size:42
Alignment explanation
Indices: 1209867--1210161 Score: 225
Period size: 43 Copynumber: 6.9 Consensus size: 42
1209857 ATAGACCCTG
* * *
1209867 ATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAACCTA
1 ATCTTTAGCGGCGCTTTGACCA-AAAACGCCACTAAAG-ACCAA
** * * **
1209911 ATCTTTAGCGGCGCTTTCCCCTAAAACGCCGC-AATAGACCCTG
1 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAA-AGA-CCAA
* * *
1209954 ATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAACCTA
1 ATCTTTAGCGGCGCTTTGACCA-AAAACGCCACTAAAG-ACCAA
** *
1209998 ATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGACCATA
1 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCA-A
* ** * * * **
1210041 ATCTTTAGTGGCGCTTTTTCCACAAACGTCGCTAAAGACCCTT
1 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGA-CCAA
*
1210084 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGGCCAA
1 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCAA
* * * * * *
1210126 CACCTTTAGTGGCGTTTTTA-AAAAAATGCCACTAAA
1 -ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAA
1210162 TTTGGCAGAT
Statistics
Matches: 201, Mismatches: 42, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
42 22 0.11
43 125 0.62
44 51 0.25
45 3 0.01
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (42 bp):
ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCAA
Found at i:1210490 original size:21 final size:21
Alignment explanation
Indices: 1210464--1210575 Score: 134
Period size: 21 Copynumber: 5.3 Consensus size: 21
1210454 TTTGACGCTG
1210464 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
1210485 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
1210506 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
1210527 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
1210548 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
1210569 ATCTGCT
1 CTCTGCT
1210576 CTAAGCTGTT
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 79 1.00
ACGTcount: A:0.04, C:0.44, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:1210637 original size:66 final size:66
Alignment explanation
Indices: 1210547--1210693 Score: 188
Period size: 66 Copynumber: 2.2 Consensus size: 66
1210537 CTCGCTGCCG
* * * *
1210547 CCTCTGCTTCTCTTGCTGCCGCATCTGCTCTAAGCTGTTGCTGGAGTTCTTCATACT-TTCGTTG
1 CCTCAGCTTCTCTCGCTGCCGCATCTACTCTAAGCTGTAGCTGGAGTTCTTCATA-TATTCGTTG
1210611 AA
65 AA
* * * * **
1210613 CCTCAGCTTCTCTCGCTGCTGCATCTACTTTCAGTTGTAGCTGGAGTTCTTCATATATTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTACTCTAAGCTGTAGCTGGAGTTCTTCATATATTCGTTGA
1210678 A
66 A
1210679 CCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
1210694 ATGTTGCCTC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
65 1 0.01
66 69 0.99
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTACTCTAAGCTGTAGCTGGAGTTCTTCATATATTCGTTGA
A
Found at i:1210715 original size:66 final size:66
Alignment explanation
Indices: 1210577--1210716 Score: 165
Period size: 66 Copynumber: 2.1 Consensus size: 66
1210567 GCATCTGCTC
* * * *
1210577 TAAGCTGTTGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCTACT
1 TAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCACT
1210642 T
66 T
* ** * * **
1210643 TCAGTTGTAGCTGGAGTTCTTCATA-TATTTTTTGAACCTCAGCTTCTCTCGATGTTGCCTCCGT
1 TAAGTTGTAGCTGGAGTTCTTCATACT-TTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCAC
1210707 TT
65 TT
1210709 TAAGTTGT
1 TAAGTTGT
1210717 GTAATTTGCT
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
65 1 0.02
66 60 0.98
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.42
Consensus pattern (66 bp):
TAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCACT
T
Found at i:1228169 original size:8 final size:8
Alignment explanation
Indices: 1228156--1228198 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
1228146 GATTGAACTG
1228156 ATTTTATA
1 ATTTTATA
1228164 ATTTTATA
1 ATTTTATA
1228172 ATTTTATA
1 ATTTTATA
*
1228180 ATTTTTAAA
1 A-TTTTATA
1228189 ATTTT-TA
1 ATTTTATA
1228196 ATT
1 ATT
1228199 AATTAATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
7 4 0.12
8 21 0.66
9 7 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
ATTTTATA
Found at i:1228204 original size:17 final size:17
Alignment explanation
Indices: 1228156--1228204 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
1228146 GATTGAACTG
*
1228156 ATTTTATAATT-TTATA
1 ATTTTATAATTATTAAA
*
1228172 ATTTTATAATTTTTAAA
1 ATTTTATAATTATTAAA
1228189 ATTTT-TAATTAATTAA
1 ATTTTATAATT-ATTAA
1228205 TTAATTATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 16 0.55
17 13 0.45
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATAATTATTAAA
Found at i:1234584 original size:19 final size:20
Alignment explanation
Indices: 1234544--1234587 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
1234534 GTCTCTTTAG
* *
1234544 GCATT-CATTTCATACATTT
1 GCATTACATTGCATACATAT
1234563 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATACATAT
1234582 GCATTA
1 GCATTA
1234588 GATTTTCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATACATAT
Found at i:1236666 original size:15 final size:16
Alignment explanation
Indices: 1236642--1236675 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1236632 TCAGATTAAA
1236642 AAAAACAAAAAAAA-C
1 AAAAACAAAAAAAATC
*
1236657 AAAAATAAAAAAAATC
1 AAAAACAAAAAAAATC
1236673 AAA
1 AAA
1236676 GTCAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAAACAAAAAAAATC
Found at i:1236697 original size:6 final size:6
Alignment explanation
Indices: 1236688--1236735 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
1236678 CAAAAATAGG
*
1236688 AGAAAA AGAAAGA AGAAAAA AGAAAA A-AAAA AGAAAA AGAAAA GGAAA
1 AGAAAA AGAAA-A AG-AAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAA
1236736 GGTCAAGGCG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
5 5 0.13
6 24 0.63
7 6 0.16
8 3 0.08
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:1236701 original size:10 final size:10
Alignment explanation
Indices: 1236688--1236729 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
1236678 CAAAAATAGG
1236688 AGAAAAAGAA
1 AGAAAAAGAA
1236698 AGAAGAAA-AA
1 AGAA-AAAGAA
*
1236708 AGAAAAAAAAA
1 AG-AAAAAGAA
1236719 AGAAAAAGAA
1 AGAAAAAGAA
1236729 A
1 A
1236730 AGGAAAGGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 19 0.68
11 9 0.32
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:1236719 original size:11 final size:11
Alignment explanation
Indices: 1236690--1236731 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
1236680 AAAATAGGAG
*
1236690 AAAAAGAAAG-
1 AAAAAAAAAGA
*
1236700 AAGAAAAAAGA
1 AAAAAAAAAGA
1236711 AAAAAAAAAGA
1 AAAAAAAAAGA
*
1236722 AAAAGAAAAG
1 AAAAAAAAAG
1236732 GAAAGGTCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:1242803 original size:17 final size:17
Alignment explanation
Indices: 1242791--1242823 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1242781 ATTTAATATA
1242791 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
1242808 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
1242824 TAATAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:1243953 original size:19 final size:19
Alignment explanation
Indices: 1243929--1243967 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1243919 TATAAATTAT
1243929 ATAATATATCTATA-TATAA
1 ATAATATAT-TATATTATAA
1243948 ATAATATATTATATTATAA
1 ATAATATATTATATTATAA
1243967 A
1 A
1243968 CATAGAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAATATATTATATTATAA
Done.